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Sample GSM1606392 Query DataSets for GSM1606392
Status Public on Feb 10, 2017
Title PCB
Sample type RNA
 
Source name CsAYTE induced PCB
Organism Mus musculus
Characteristics cell type: embryonic stem cells
time point: day 5.5
Treatment protocol CsAYTE was treated whenever medium was changed. DMSO was treated as a control vehicle.
Growth protocol For induction and differentiation of Flk1+ MPC, sfPCB, PCB, and M+CM, mouse PSC were cultured in differentiation medium without leukemia inhibitory factor.
Extracted molecule total RNA
Extraction protocol Total RNA extracted using Trizol following manufacturer's instructions.
Label Cy3
Label protocol Amplified and labeled cRNA was purified on cRNA Cleanup Module (Agilent Technology) according to the manufacturer’s protocol. Labeled cRNA target was quantified using ND-1000 spectrophotometer (NanoDrop Technologies, Inc., Wilmington, DE).
 
Hybridization protocol After checking labeling efficiency, fragmentation of cRNA was performed by adding 10X blocking agent and 25X fragmentation buffer and incubating at 60oC for 30 min. The fragmented cRNA was resuspended with 2X hybridization buffer and directly pipetted onto assembled Agilent’s Mouse Oligo Microarray (44K). The arrays hybridized at 65oC for 17 hours using Agilent Hybridization oven (Agilent Technology, USA). The hybridized microarrays were washed as the manufacturer’s washing protocol (Agilent Technology, USA).
Scan protocol The hybridized images were scanned using Agilent’s DNA microarray scanner and quantified with Feature Extraction Software (Agilent Technology, Palo Alto, CA).
Description Gene expression at day 5.5 with CsAYTE
Data processing All data normalization and further analysis were performed using GeneSpringGX 7.3 (Agilent Technology, USA).
 
Submission date Feb 10, 2015
Last update date Feb 10, 2017
Contact name Gou Young Koh
E-mail(s) gykoh@kaist.ac.kr
Phone 82-42-350-2638
Organization name KAIST
Street address 291 Daehark-ro, Yuseong-gu
City Daejeon
ZIP/Postal code 305-701
Country South Korea
 
Platform ID GPL11202
Series (1)
GSE65791 Generation of PDGFRα+ Cardioblasts from Pluripotent Stem Cells

Data table header descriptions
ID_REF
VALUE Normalized signal intensity (Global normalization)

Data table
ID_REF VALUE
A_51_P100034 10.83737012
A_51_P100174 12.24984351
A_51_P100208 1.969572326
A_51_P100289 14.07479123
A_51_P100298 7.777555956
A_51_P100309 1.857806787
A_51_P100327 8.774034982
A_51_P100347 5.080276475
A_51_P100519 1.832961287
A_51_P100537 4.3892284
A_51_P100573 9.705350214
A_51_P100624 1.752300302
A_51_P100625 5.464140391
A_51_P100768 1.95659942
A_51_P100776 5.881717056
A_51_P100787 12.88400689
A_51_P100828 12.88853583
A_51_P100852 4.203612289
A_51_P100991 6.695698787
A_51_P100997 6.683834542

Total number of rows: 39429

Table truncated, full table size 981 Kbytes.




Supplementary file Size Download File type/resource
GSM1606392_PCB.txt.gz 2.2 Mb (ftp)(http) TXT
Processed data included within Sample table

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